論文 - 詳細
| RRC ID | 32672 |
|---|---|
| 著者 | Shirasawa K, Hirakawa H, Nunome T, Tabata S, Isobe S. |
| タイトル | Genome-wide survey of artificial mutations induced by ethyl methanesulfonate and gamma rays in tomato. |
| ジャーナル | Plant Biotechnol J |
| Abstract |
Genome-wide mutations induced by ethyl methanesulfonate (EMS) and gamma irradiation in the tomato Micro-Tom genome were identified by a whole-genome shotgun sequencing analysis to estimate the spectrum and distribution of whole-genome DNA mutations and the frequency of deleterious mutations. A total of ~370 Gb of paired-end reads for four EMS-induced mutants and three gamma-ray-irradiated lines as well as a wild-type line were obtained by next-generation sequencing technology. Using bioinformatics analyses, we identified 5920 induced single nucleotide variations and insertion/deletion (indel) mutations. The predominant mutations in the EMS mutants were C/G to T/A transitions, while in the gamma-ray mutants, C/G to T/A transitions, A/T to T/A transversions, A/T to G/C transitions and deletion mutations were equally common. Biases in the base composition flanking mutations differed between the mutagenesis types. Regarding the effects of the mutations on gene function, >90% of the mutations were located in intergenic regions, and only 0.2% were deleterious. In addition, we detected 1,140,687 spontaneous single nucleotide polymorphisms and indel polymorphisms in wild-type Micro-Tom lines. We also found copy number variation, deletions and insertions of chromosomal segments in both the mutant and wild-type lines. The results provide helpful information not only for mutation research, but also for mutant screening methodology with reverse-genetic approaches. |
| 巻・号 | 14(1) |
| ページ | 51-60 |
| 公開日 | 2016-1-1 |
| DOI | 10.1111/pbi.12348 |
| PMID | 25689669 |
| PMC | PMC5023996 |
| MeSH | Base Sequence DNA Copy Number Variations / genetics Ethyl Methanesulfonate Gamma Rays* Genes, Plant Genome, Plant* INDEL Mutation / genetics Mutation / genetics* Plants, Genetically Modified Polymorphism, Single Nucleotide / genetics Sequence Analysis, DNA Solanum lycopersicum / genetics* Solanum lycopersicum / radiation effects* Surveys and Questionnaires* |
| IF | 8.154 |
| 引用数 | 59 |
| WOS 分野 | PLANT SCIENCES BIOTECHNOLOGY & APPLIED MICROBIOLOGY |
| オルトメトリクス指標 |
オルトメトリクス指標項目
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| 最多言及媒体 | X(Twitter) |
| 各媒体での言及数の合計 | 1 |
| 過去6か月間でのオルトメトリクス指標の変動値 | 0.0 |
| リソース情報 | |
| トマト | TOMJPG1269-1 TOMJPG1679-1 TOMJPG2893-1 TOMJPE6018-1 EMS bulk set C TOMJPF00001 |